General information for g9427.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as S-formylglutathione hydrolase.
Parent gene
- The parent gene g9427 is located on chr_1: 2861207..2868793 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g9427 | g9427.t4 | TTS | g9427.t4 | 2860174 | 2860174 |
| chr_1 | g9427 | g9427.t4 | isoform | g9427.t4 | 2860211 | 2861207 |
| chr_1 | g9427 | g9427.t4 | exon | g9427.t4.exon1 | 2860211 | 2860545 |
| chr_1 | g9427 | g9427.t4 | cds | g9427.t4.CDS1 | 2860211 | 2860545 |
| chr_1 | g9427 | g9427.t4 | exon | g9427.t4.exon2 | 2860624 | 2860710 |
| chr_1 | g9427 | g9427.t4 | cds | g9427.t4.CDS2 | 2860624 | 2860710 |
| chr_1 | g9427 | g9427.t4 | exon | g9427.t4.exon3 | 2860790 | 2861207 |
| chr_1 | g9427 | g9427.t4 | cds | g9427.t4.CDS3 | 2860790 | 2861207 |
| chr_1 | g9427 | g9427.t4 | TSS | g9427.t4 | 2861251 | 2861251 |
Sequences
>g9427.t4 Gene=g9427 Length=840
ATGTCAGAATTAAAAGAAATAAGTTCGAATAAAATATTCAATGGCTATCAAAAAGTGTTT
TCACATCAATCTAAAGAGTTGTCATGTGAAATGAATTTTGCCATCTTTCTGCCAGCCGAT
TCTGCAGAAAAAAAGTTACCGGTTTTATATTATCTCTCTGGTTTGACTTGTAATGAATTA
AATTGCGTGCAAAAATCTGGATTTCAAAGATATGCAGCTGAAAAAGGTTTAATTGTTGTT
TGTCCTGACACATCTCCAAGAAATATTGAAGGATTAGATACAAAAGATTTCTCTTGGGAT
TTCGGTTATGGAGCTGCTTTTTATGTTGATTCGACAACTGATGCATACAAGAAGAACTTT
AGAATGTATAGCTACATAACATCTGAATTAATCGATGTCATCAACTCAAACTTTAATGTA
ATTCCAAATAAGCAATCTATATTTGGCCATTCAATGGGTGGACACGGAGCCCTCATTGCT
GCTTTGAAAACTGGTCTTTATAAGACATTTGCACCTATTTCAAATCCAATCAATTGTCCA
TGGGGTGAAAAATGTTTTACTGGTTACTTGGGTGACAATAGGGAAAGTTGGAAAGAATAT
GATGCCACTGAATTGGTTGCAAAATATAATGGTCCTCCTCTCGAATTGTTCATTGATCAG
GGTAGTGAAGATCAATTTTTGAAGGAAAATCAATTGTTGCCGAATAATCTAATTGAAGCT
GCAAAGAAAGCCCAAGTACCGTTCATTTATAAACTTCGTGATGGATATGATCACAGCTAT
TTCTTTATTGCAACATTTATTGGCGAGCATATTGATTATCATGCAAAGCATTTATTGTAA
>g9427.t4 Gene=g9427 Length=279
MSELKEISSNKIFNGYQKVFSHQSKELSCEMNFAIFLPADSAEKKLPVLYYLSGLTCNEL
NCVQKSGFQRYAAEKGLIVVCPDTSPRNIEGLDTKDFSWDFGYGAAFYVDSTTDAYKKNF
RMYSYITSELIDVINSNFNVIPNKQSIFGHSMGGHGALIAALKTGLYKTFAPISNPINCP
WGEKCFTGYLGDNRESWKEYDATELVAKYNGPPLELFIDQGSEDQFLKENQLLPNNLIEA
AKKAQVPFIYKLRDGYDHSYFFIATFIGEHIDYHAKHLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9427.t4 | Gene3D | G3DSA:3.40.50.1820 | - | 4 | 279 | 0 |
| 2 | g9427.t4 | PANTHER | PTHR10061 | S-FORMYLGLUTATHIONE HYDROLASE | 4 | 278 | 0 |
| 3 | g9427.t4 | PANTHER | PTHR10061:SF0 | S-FORMYLGLUTATHIONE HYDROLASE | 4 | 278 | 0 |
| 1 | g9427.t4 | Pfam | PF00756 | Putative esterase | 24 | 272 | 0 |
| 4 | g9427.t4 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 5 | 278 | 0 |
| 6 | g9427.t4 | TIGRFAM | TIGR02821 | fghA_ester_D: S-formylglutathione hydrolase | 7 | 278 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0046294 | formaldehyde catabolic process | BP |
| GO:0018738 | S-formylglutathione hydrolase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01070 (S-formylglutathione hydrolase)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed